Linkage analysis of anther-derived monoploids showing distorted segregation of molecular markers

Tai, G. C. C.; Seabrook, Janet E. A.; Aziz, Ahmad Naseer

doi:10.1007/s001220051460

Cited by 19 publications

(8 citation statements)

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“…Previous studies have showed that a large number of segregation distortions and SDRs occur in many species, such as maize [28], barley [29] potato [30], sesame [24], peanut [31] and sorghum [3, 19]. The genetic basis of segregation distortion is still under debate, and gametophyte and/or zygotic selection and chromosomal rearrangements may be the main cause of this phenomenon [3].…”

Section: Discussionmentioning

confidence: 99%

Construction of a high-density genetic map using specific-locus amplified fragments in sorghum

Qing-jiang

et al. 2017

BMC Genomics

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BackgroundSorghum is mainly used as a human food and beverage source, playing an important role in the production of ethanol and other bio-industrial products. Thus it is regarded as a model crop for energy plants. Genetic map construction is the foundation for marker-assisted selection and gene cloning. So far several sorghum linkage maps have been reported using different kinds of molecular markers. However marker numbers and chromosome coverage are limited. As a result, it is difficult to get consistent results and the maps are hard to unify. In the present study, the genomes of 130 individuals consisting an F2 population together with their parents were surveyed using a high-throughput sequencing technique. A high-density linkage map was constructed using specific-locus amplified fragments (SLAF) markers. This map can provide information and serve as a reference for effective gene exploration, and for marker assisted-breeding program.ResultsA high-throughput sequencing method was adopted to screen SLAF markers with 130 F2 individuals from a cross between a grain sorghum variety, J204, and a sweet sorghum variety, Keter. In the present study, 52,928 suitable SLAF markers out of 43,528,021 pair-end reads were chosen to conduct genetic map construction, 12.0% of which were polymorphic. Among the 6353 polymorphic SLAF markers, 5829 (91.8%) were successfully genotyped in the F2 mapping population. Finally 2246 SLAF markers were obtained to construct a high-density genetic linkage map. The total distance of linkage map covering all 10 chromosomes was 2158.1 cM. The largest gap on each chromosome was 10.2 cM on average. The proportion of gaps less than and/or equal to 5.0 cM was averagely 98.1%. The markers on each chromosome ranged from 123 (chromosome 9) to 315 (chromosome 4) with a mean value of 224.6, the distance between adjacent markers ranged from 0.6 (chromosome 10) to 1.3 cM (chromosome 9) with an average distance of only 0.98 cM.ConclusionA high density sorghum genetic map was constructed in this study. The total length was 2158.1 cM covering all 10 chromosomes with a total number of 2246 SLAF markers. The construction of this map can provide detailed information for accurate gene localization and cloning and application of marker-assisted breeding.Electronic supplementary materialThe online version of this article (doi:10.1186/s12864-016-3430-7) contains supplementary material, which is available to authorized users.

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Section: Discussionmentioning

confidence: 99%

Construction of a high-density genetic map using specific-locus amplified fragments in sorghum

Qing-jiang

et al. 2017

BMC Genomics

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“…Segregation distortion, a commonly encountered phenomenon in QTL mapping, is the deviation of observed genetic ratios from the expected Mendelian ratios of a given genotypic class within a segregating population (Lyttle, 1991). A powerful evolutionary force (Taylor and Ingvarsson, 2003), it has been reported in several crop species (Tai et al, 2000; Kumar et al, 2007; Xu et al, 2008). Segregation distortion is influenced by many factors such as mapping population, residual heterozygosity in parental lines, gametophytic competition, abortion of male or female gametes or zygotes, nonhomologous recombination, transposable elements, chromosome translocation, complementary genes, and experimental techniques (Cloutier et al, 1997; Knox and Ellis, 2002; Zhu et al, 2007; Yamagishi et al, 2010).…”

Section: Discussionmentioning

confidence: 99%

Mapping Quantitative Trait Loci for Powdery Mildew Resistance in Flax (Linum usitatissimum L.)

et al. 2013

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Powdery mildew (Oidium lini Skoric, [PM]), an obligate biotrophic ascomycete, is a common and widespread foliar disease of flax in most flax‐growing areas of the world. In this study, we constructed a linkage map using 143 simple sequence repeat (SSR) markers and an F2 population of 300 individuals generated from a cross between the susceptible cultivar NorMan and the resistant cultivar Linda. The F2–derived F3 families were phenotyped in the field and the F3–derived F4 families were phenotyped in a controlled environment growth chamber. The 15 linkage group map covered 1241 cM and was largely collinear with the previously published consensus map. Quantitative trait loci (QTL) analysis was performed and three PM resistance QTL located on LG1, 7, and 9 were identified consistently using phenotyping data from both field and growth chamber studies. These QTL explained 97% of the phenotypic variation exhibiting a mainly dominant gene action. This work represents a first step toward understanding the genetics of PM resistance in flax and map‐based cloning of candidate genes underlying the QTL.

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“…The genome coverage and density of markers of these maps allow the identification of segregation distortion regions (SDRs). The SDRs are defined by clusters of markers closely linked to genes causing distortion, as markers with distorted segregation will cosegregate and result in the highest-skewed genotypic frequencies associated with the distorting factor ( Lu et al 2002 ; Tai et al 2000 ; Zamir and Tadmor 1986 ). Analysis of SDRs in multiple mapping populations has been used to determine whether zygotic or gametophytic factors are associated and, in some cases, to identify the genes underlying the distorted segregation ( Kumar et al 2007 ; Lu et al 2002 ; Wu et al 2010 ; Xu et al 1997 ).…”

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Comparative Analysis of Regions with Distorted Segregation in Three Diploid Populations of Potato

Manrique-Carpintero

Coombs

Veilleux

et al. 2016

G3 Genes|Genomes|Genetics

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Genes associated with gametic and zygotic selection could underlie segregation distortion, observed as alterations of expected Mendelian genotypic frequencies in mapping populations. We studied highly dense genetic maps based on single nucleotide polymorphisms to elucidate the genetic nature of distorted segregation in potato. Three intra- and interspecific diploid segregating populations were used. DRH and D84 are crosses between the sequenced doubled monoploid DM 1-3 516 R44 Solanum tuberosum Group Phureja and either RH89-039-16 S. tuberosum or 84SD22, a S. tuberosum × S. chacoense hybrid. MSX902 is an interspecific cross between 84SD22 and Ber83 S. berthaultii × 2 × species mosaic. At the 0.05 significance level, 21%, 57%, and 51% of the total markers mapped in DRH, D84, and MSX902 exhibited distorted segregation, respectively. Segregation distortion regions for DRH were located on chromosomes 9 and 12; for D84 on chromosomes 2, 3, 4, 6, 7, and 8; and on chromosomes 1, 2, 7, 9, and 12 for MSX902. In general, each population had unique segregation distortion regions and directions of distortion. Interspecific crosses showed greater levels of distorted segregation and lower recombination rates as determined from the male parents. The different genomic regions where the segregation distortion regions occurred in the three populations likely reflect unique genetic combinations producing distorted segregation.

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Linkage analysis of anther-derived monoploids showing distorted segregation of molecular markers

Cited by 19 publications

References 10 publications

Construction of a high-density genetic map using specific-locus amplified fragments in sorghum

Construction of a high-density genetic map using specific-locus amplified fragments in sorghum

Mapping Quantitative Trait Loci for Powdery Mildew Resistance in Flax (Linum usitatissimum L.)

Comparative Analysis of Regions with Distorted Segregation in Three Diploid Populations of Potato

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